Mercurial > repos > rnateam > graphprot_predict_profile

comparison graphprot_train_predict.xml @ 5:58ebf089377e draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/graphprot commit 902e994cb04db968ce797afa676f5fa6512ab6d3
author bgruening
date Tue, 06 Aug 2024 14:54:58 +0000
parents 4cebb3439e1a
children
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4:2d6de5b769e6 5:58ebf089377e
1 <tool id="graphprot_predict_profile" name="GraphProt" version="1.1.7+galaxy1"> 1 <tool id="graphprot_predict_profile" name="GraphProt" version="1.1.7+galaxy2" profile="23.1">
2 <description>- Train models and predict RBP binding profiles</description> 2 <description>- Train models and predict RBP binding profiles</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.1.7">graphprot</requirement> 4 <requirement type="package" version="1.1.7">graphprot</requirement>
5 </requirements> 5 </requirements>
6
7 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
8 #if $action_type.action_type_selector == 'train': 7 #if $action_type.action_type_selector == 'train':
9 python '$__tool_directory__/graphprot_train_wrapper.py' 8 python '$__tool_directory__/graphprot_train_wrapper.py'
10 --data-id GraphProt 9 --data-id GraphProt
11 --pos '$action_type.pos_fasta_file' 10 --pos '$action_type.pos_fasta_file'
18 --opt-neg '$action_type.hpo_options.hpo_mode_type.neg_parop_fasta' 17 --opt-neg '$action_type.hpo_options.hpo_mode_type.neg_parop_fasta'
19 #end if 18 #end if
20 $action_type.training_options.disable_cv 19 $action_type.training_options.disable_cv
21 $action_type.training_options.disable_motifs 20 $action_type.training_options.disable_motifs
22 --min-train $action_type.training_options.min_train 21 --min-train $action_type.training_options.min_train
22 --gp-output
23 23
24 #elif $action_type.action_type_selector == 'predict': 24 #elif $action_type.action_type_selector == 'predict':
25 python '$__tool_directory__/graphprot_predict_wrapper.py' 25 python '$__tool_directory__/graphprot_predict_wrapper.py'
26 --data-id GraphProt 26 --data-id GraphProt
27 --fasta '$action_type.input_fasta_file' 27 --fasta '$action_type.input_fasta_file'
33 --sc-thr $action_type.prediction_options.score_thr 33 --sc-thr $action_type.prediction_options.score_thr
34 --max-merge-dist $action_type.prediction_options.max_merge_dist 34 --max-merge-dist $action_type.prediction_options.max_merge_dist
35 --ap-extlr $action_type.prediction_options.ap_extlr 35 --ap-extlr $action_type.prediction_options.ap_extlr
36 $action_type.prediction_options.conf_out 36 $action_type.prediction_options.conf_out
37 $action_type.prediction_options.ws_pred_out 37 $action_type.prediction_options.ws_pred_out
38 --gp-output
38 #end if 39 #end if
39 40
40 41
41 ]]></command> 42 ]]></command>
42 43